Compare FGS mtdna against Neandertal

[jloe]

BLAST your FGS mtdna against Neandertal

Example:
Neandertal full sequence is NC_011137.
Human full sequence is NC_012920.

Go to: http://blast.ncbi.nlm.nih.gov/Blast.cgi, and then select nucleotide blast

1. select align two or more sequences
2. paste the NC_011137 in the top box. <- Neandertal mtdna full sequence
3. paste NC_012920 in the second box (or your full genome accession number, if you've tested with FTDNA and uploaded to Genbank).
4. click BLAST
5. Scroll down
6. See the number of identities:
16358 out of 16570 or 212 mutations

My result: 217 mutations
Neandertal vs rCRS: 206 mutations

ref
This paper http://www.ncbi.nlm.nih.gov/pmc/arti...nihms65170.pdf
found "Alignment of the 16,565 nt Neandertal mtDNA to the 16,568 nt human revised Cambridge reference mtDNA sequence (rCRS) (Andrews et al., 1999) revealed 206 differences (195 transitions and 11 transversions)."

[RColeman]

Interesting!

My result is 209 mutations.

[jloe]

The same exercise vs chimpanzee:

chimpanzee: NC_001644
human reference: NC_012920

1061 mutations
Identities = 12198/13259 (92%)
(estimated divergence time of 7 million years between chimpanzees and humans)

my result: 1058 mutations